Friday, March 14, 2014

Fwd STINGRAY: system for integrated genomic resources and analysis

Nice platform for semi-automated genome building and annotation. Certainly worth trying if you work with a small enough genome.

Fwd: please follow footer link

STINGRAY: system for integrated genomic resour... [BMC Res Notes. 2014] - PubMed - NCBI: "BMC Res Notes. 2014 Mar 7;7(1):132. [Epub ahead of print]
STINGRAY: system for integrated genomic resources and analysis.
Wagner G, Jardim R, Tschoeke DA, Loureiro DR, Ocaña KA, Ribeiro AC, Emmel VE, Probst CM, Pitaluga AN, Grisard EC, Cavalcanti MC, Campos ML, Mattoso M, Dávila AM.
Abstract
BACKGROUND:
The STINGRAY system has been conceived to ease the tasks of integrating, analyzing, annotating and presenting genomic and expression data from Sanger and Next Generation Sequencing (NGS) platforms.
FINDINGS:
STINGRAY includes: (a) a complete and integrated workflow (more than 20 bioinformatics tools) ranging from functional annotation to phylogeny; (b) a MySQL database schema, suitable for data integration and user access control; and (c) a user-friendly graphical web-based interface that makes the system intuitive, facilitating the tasks of data analysis and annotation.
CONCLUSION:
STINGRAY showed to be an easy to use and complete system for analyzing sequencing data. While both Sanger and NGS platforms are supported, the system could be faster using Sanger data, since the large NGS datasets could potentially slow down the MySQL database usage. STINGRAY is available at http://stingray.biowebdb.org and the open source code at http://sourceforge.net/projects/stingray-biowebdb."

(Via http://www.ncbi.nlm.nih.gov/pubmed/24606808.)